BLASTP 2.2.18 [Mar-02-2008]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 0128.0003.p
         (537 letters)

Database: BlastDatabases/689/689 
           4735 sequences; 1,619,870 total letters

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312560|ref|YP_003776652.1| xanthine dehydrogenase subunit ...   871   0.0  
gi|300310659|ref|YP_003774751.1| aerobic-type carbon monoxide de...    57   5e-09

>gi|300312560|ref|YP_003776652.1| xanthine dehydrogenase subunit B
           [Herbaspirillum seropedicae SmR1]
          Length = 789

 Score =  871 bits (2251), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 412/492 (83%), Positives = 450/492 (91%), Gaps = 3/492 (0%)

Query: 1   MIVTGKRHCFAYDYEIGYDDNGRIVAAKIDMVSRAGFSADLSGPVATRAVCHFDNAYYLS 60
           M+VTGKRHCFAYDYEIGYDD+GRIVAAKI+M+SRAGFSADLSGPVATRAVCHFDNAYYLS
Sbjct: 282 MMVTGKRHCFAYDYEIGYDDHGRIVAAKIEMISRAGFSADLSGPVATRAVCHFDNAYYLS 341

Query: 61  DVEIHAMCGKTNTQSNTAFRGFGGPQGAIAIEYILDEIARNLGKDALEVRRANFYGDSAA 120
           DV+I AMCGKTNTQSNTAFRGFGGPQGA+AIEYI+D+IAR+LG+D LE+RR NFYG S  
Sbjct: 342 DVDIRAMCGKTNTQSNTAFRGFGGPQGALAIEYIIDDIARHLGRDPLEIRRNNFYGPSDE 401

Query: 121 EGPDARNTTHYGQRVEDNVIQALVDQLESTSEYQVRRQAINVFNAENTILKRGLALTPVK 180
           EGP ARN THYGQ+VEDN+I ALVDQLE +S YQ RRQA+  FNA +T+LK+GLALTPVK
Sbjct: 402 EGPQARNVTHYGQKVEDNIIPALVDQLERSSRYQERRQAVAAFNAGSTVLKKGLALTPVK 461

Query: 181 FGISFNVPHLNQAGSLVHVYTDGSVLVNHGGTEMGQGLNTKVAQVVANALGLPLEQVRCT 240
           FGISFNVPHLNQAG+LVHVYTDGSVLVNHGGTEMGQGLNTKVAQVVA+ LG+PLE+VRC+
Sbjct: 462 FGISFNVPHLNQAGALVHVYTDGSVLVNHGGTEMGQGLNTKVAQVVAHTLGVPLERVRCS 521

Query: 241 ATDTSKIANTSATAASTGSDLNGKAAQDAALQIRGRLAQVAAERFGVDAGEVRFADGMVS 300
           ATDTSK+ANTSATAASTGSDLNGKAAQDAALQ+R RLAQVAA   GV+   VRFADG V 
Sbjct: 522 ATDTSKVANTSATAASTGSDLNGKAAQDAALQVRTRLAQVAATLLGVEPTAVRFADGRVM 581

Query: 301 TNAPSMASVTFEELVMQAYLKRVQLWSDGFYSTPKVHWNAKTMNGHPFFYFAYGAAVSEV 360
             A SMA   F ELVM+AYL+RVQLWSDGFYSTPKVHW+AK M+GHPFFYFAY AAVSEV
Sbjct: 582 AGAQSMA---FAELVMKAYLQRVQLWSDGFYSTPKVHWDAKRMHGHPFFYFAYAAAVSEV 638

Query: 361 VIDTLTGEWRLLRADSLYDAGESLNPAIDIGQVEGGFIQGMGWLTTEELWWNKDGKLMTH 420
           VIDTLTGEW+LL+AD LYDAG+SLNPA+DIGQVEGGFIQGMGWLTTEELWWNKDGKLMTH
Sbjct: 639 VIDTLTGEWKLLQADLLYDAGQSLNPALDIGQVEGGFIQGMGWLTTEELWWNKDGKLMTH 698

Query: 421 APSTYKIPAVSDCPTDFRTQLFKNSNVSDTIHRSKATGEPPLLLPFSVFLAIRDAVSAVG 480
           APSTYKIPA+SDCP   RT+LF+N NVSDTIHRSKA GEPPLLLPFSVFLAIRDAVSAVG
Sbjct: 699 APSTYKIPAISDCPARLRTELFQNRNVSDTIHRSKAVGEPPLLLPFSVFLAIRDAVSAVG 758

Query: 481 EHRINPPLRARA 492
            HR+NPPLRA A
Sbjct: 759 GHRVNPPLRAPA 770


>gi|300310659|ref|YP_003774751.1| aerobic-type carbon monoxide
           dehydrogenase large subunit [Herbaspirillum seropedicae
           SmR1]
          Length = 759

 Score = 56.6 bits (135), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 35/120 (29%), Positives = 58/120 (48%)

Query: 196 LVHVYTDGSVLVNHGGTEMGQGLNTKVAQVVANALGLPLEQVRCTATDTSKIANTSATAA 255
            V +  +G VL  +G  ++G G+ T +AQ+VA  L L +EQV      T +  N   T A
Sbjct: 56  FVAILGEGQVLAFNGHVDLGTGIRTSLAQIVAEELSLSMEQVSMILGHTEEAPNQGPTIA 115

Query: 256 STGSDLNGKAAQDAALQIRGRLAQVAAERFGVDAGEVRFADGMVSTNAPSMASVTFEELV 315
           S    ++    + AA Q R  L  +AA R+    G +R   G +     +  ++++ EL+
Sbjct: 116 SATIQISAMPLRKAAAQAREHLLAMAAARWATPVGRLRVEAGCIIDADVAGRTISYFELL 175


  Database: BlastDatabases/689/689
    Posted date:  Apr 10, 2011 12:15 AM
  Number of letters in database: 1,619,870
  Number of sequences in database:  4735
  
Lambda     K      H
   0.318    0.132    0.394 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4735
Number of Hits to DB: 1,594,708
Number of extensions: 64192
Number of successful extensions: 161
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 159
Number of HSP's successfully gapped: 2
Length of query: 537
Length of database: 1,619,870
Length adjustment: 90
Effective length of query: 447
Effective length of database: 1,193,720
Effective search space: 533592840
Effective search space used: 533592840
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 133 (55.8 bits)